HNRNPH2 RNA-Seq in 293T

Experiment Information (Status: Submitting)

	BG293LV05-41	BG293LV05-42
idx	0	0
TRCN#_or_BGC#	TRCN0000075093	TRCN0000075093
shRNA_or_gRNA_sequence	CCGGGCTTACTGTAAAGTGGAAGTTCTCGAGAACTTCCACTTTACAGTAAGCTTTTTG	CCGGGCTTACTGTAAAGTGGAAGTTCTCGAGAACTTCCACTTTACAGTAAGCTTTTTG
PAM
Name	HNRNPH2	HNRNPH2
Sample_ID	BG293LV05-41	BG293LV05-42
transduction_Date	12/18/23	12/18/23
days	D4	D4
RBP_name	HNRNPH2	HNRNPH2
qPCR_result	90.5	89.4
Ave_qPCR	89.95
RT-qPCR_primer-F	TAGCCGTTTGAGGGAAGAAG
RT-qPCR_primer-R	GTGATTGTTGGGCTCTTGGT
protein_conc	0	0
WB_result
Ave_WB
WB_DONE_date
MW
IP
antibody_Cat#
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM	0	0
Rep2_TPM	0	0
Action	Ready	Ready
Library_start_date
repeat_library
Note
ID	10013	10014

Western Blot Western Blot info was not avaliable

Experiment Status

	BG293LV05-41	BG293LV05-42
Sample_ID	BG293LV05-41	BG293LV05-42
Sample Name
Sample Name	HNRNPH2-BG293LV05-41	HNRNPH2-BG293LV05-42
RBP	HNRNPH2	HNRNPH2
Cell_Line	293T	293T
Exp UID
Status	Submitting	Submitting
Status_date	2024-05-07	2024-05-07
Project	ENCORE2	ENCORE2
Note
ID	12854	12855

Library-Prep
Sequencing

Library-Prep Information

	BG293LV05-41	BG293LV05-42
Sample #	21	22
Sample Name	HNRNPH2-BG293LV05-41	HNRNPH2-BG293LV05-42
Sample_Name_Alias
Index Well Position	E09	F09
Index_table	IDT_UniqueDualIndex_96	IDT_UniqueDualIndex_96
LibPrep_date	2024-01-16	2024-01-16
Lib_ID	Lib-240116	Lib-240116
Tecan_Location
Tecan
Tecan_date
Size_bp	285	279
Peak_Molarity	80.90	82.00
libSampleQC_DNA_Well	DNA_Library_set69/set1/E3.png	DNA_Library_set69/set1/F3.png
RIN	9.6	9.5
libSample_RNA_Well	RNA_Library_set69/set1/F8.png	RNA_Library_set69/set1/G8.png
SampleQC_method	TapeStation_2022	TapeStation_2022
SampleQC_date	2024-01-19	2024-01-19
Sample_ID	BG293LV05-41	BG293LV05-42
RBP	HNRNPH2	HNRNPH2
Batch_ID	BG293LV05	BG293LV05
WB_result	0.000	0.000
Library Description	TruSeq mRNA	TruSeq mRNA
Repeat_Library_Suffix
Lib_Status	SendToSequence	SendToSequence
Project	ENCORE2	ENCORE2
ID	4202	4203

Sequencing Information

	BG293LV05-41	BG293LV05-42
Sample_ID	BG293LV05-41	BG293LV05-42
Sample Name	HNRNPH2-BG293LV05-41	HNRNPH2-BG293LV05-42
Pool ID	Pool-240119	Pool-240119
LocalServer_folder	set69	set69
total_reads	21,334,534	19,382,263
total_aligned_reads	18,213,532	17,047,089
unique_aligned_reads	16,756,087	15,734,686
percent_uniqueAligned	0.78540	0.81181
correlation_replicates	0.993517	0.993517
spikein_reads	3,768	4,808
percent_spikeins	0.00018	0.00025
original_ReadLength	101	101
QC_Status	Submitting	Submitting
ID	2921	2922

Data Submission Information DCC submission information was not avaliable

File Information

file_name	file_path	file_format	output_type	assay_type	lab	Sample ID	platform	read_length	run_type	paired_end	assembly	genome_annotation	derived_from	controlled_by	Project	FILE_ID
HNRNPH2-BG293LV05-41_S153_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set69/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2921	NovaSeq6000	100	paired-ended	1				NT-BG293LV05-1_merged_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV05-2_S134_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	28503
HNRNPH2-BG293LV05-41_S153_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set69/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2921	NovaSeq6000	100	paired-ended	2				NT-BG293LV05-1_merged_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV05-2_S134_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	28547
HNRNPH2-BG293LV05-41_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2921					GRCh38	V40	HNRNPH2-BG293LV05-41_S153_L002_R1_001.filtered.trimmed.paired.fastq.gz,HNRNPH2-BG293LV05-41_S153_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28591
HNRNPH2-BG293LV05-41_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2921					GRCh38	V40	HNRNPH2-BG293LV05-41/Aligned.sortedByCoord.out.bam		ENCORE2	28635
HNRNPH2-BG293LV05-41_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2921					GRCh38	V40	HNRNPH2-BG293LV05-41/Aligned.sortedByCoord.out.bam		ENCORE2	28679
HNRNPH2-BG293LV05-41_Signal.Unique.strand-.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2921					GRCh38	V40	HNRNPH2-BG293LV05-41/Aligned.sortedByCoord.out.bam		ENCORE2	28723
HNRNPH2-BG293LV05-41_Signal.Unique.strand+.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2921					GRCh38	V40	HNRNPH2-BG293LV05-41/Aligned.sortedByCoord.out.bam		ENCORE2	28767
HNRNPH2-BG293LV05-41_quant.sf	ENCODE_DATA/set69/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2921					GRCh38	V40	HNRNPH2-BG293LV05-41_S153_L002_R1_001.filtered.trimmed.paired.fastq.gz,HNRNPH2-BG293LV05-41_S153_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28811
HNRNPH2-BG293LV05-42_S154_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set69/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2922	NovaSeq6000	100	paired-ended	1				NT-BG293LV05-1_merged_R1_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV05-2_S134_L002_R1_001.filtered.trimmed.paired.fastq.gz	ENCORE2	28504
HNRNPH2-BG293LV05-42_S154_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCODE_DATA/set69/fastq_trimmed	fastq	reads	knockdown followed by RNA-seq	Graveley Lab	2922	NovaSeq6000	100	paired-ended	2				NT-BG293LV05-1_merged_R2_001.filtered.trimmed.paired.fastq.gz,NT-BG293LV05-2_S134_L002_R2_001.filtered.trimmed.paired.fastq.gz	ENCORE2	28548
HNRNPH2-BG293LV05-42_Aligned.sortedByCoord.out.bam	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bam	alignments	knockdown followed by RNA-seq	Graveley Lab	2922					GRCh38	V40	HNRNPH2-BG293LV05-42_S154_L002_R1_001.filtered.trimmed.paired.fastq.gz,HNRNPH2-BG293LV05-42_S154_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28592
HNRNPH2-BG293LV05-42_Signal.UniqueMultiple.strand-.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig-all	minus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2922					GRCh38	V40	HNRNPH2-BG293LV05-42/Aligned.sortedByCoord.out.bam		ENCORE2	28636
HNRNPH2-BG293LV05-42_Signal.UniqueMultiple.strand+.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig+all	plus strand signal of all reads	knockdown followed by RNA-seq	Graveley Lab	2922					GRCh38	V40	HNRNPH2-BG293LV05-42/Aligned.sortedByCoord.out.bam		ENCORE2	28680
HNRNPH2-BG293LV05-42_Signal.Unique.strand-.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig-unique	minus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2922					GRCh38	V40	HNRNPH2-BG293LV05-42/Aligned.sortedByCoord.out.bam		ENCORE2	28724
HNRNPH2-BG293LV05-42_Signal.Unique.strand+.bw	ENCODE_DATA/set69/STAR_ENCORE2_trimmed_file_links	bigWig+unique	plus strand signal of unique reads	knockdown followed by RNA-seq	Graveley Lab	2922					GRCh38	V40	HNRNPH2-BG293LV05-42/Aligned.sortedByCoord.out.bam		ENCORE2	28768
HNRNPH2-BG293LV05-42_quant.sf	ENCODE_DATA/set69/salmon_ENCORE2	transcript_quantification	transcript quantifications	knockdown followed by RNA-seq	Graveley Lab	2922					GRCh38	V40	HNRNPH2-BG293LV05-42_S154_L002_R1_001.filtered.trimmed.paired.fastq.gz,HNRNPH2-BG293LV05-42_S154_L002_R2_001.filtered.trimmed.paired.fastq.gz		ENCORE2	28812